Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11398	0.697
27DAP/17DAP	1.11366	0.849
39DAP/27DAP	0.85067	0.522
41DAP/39DAP	1.02118	1
42DAP/41DAP	1.10125	0.912
43DAP/42DAP	1.09607	0.985
47DAP/43DAP	1.12229	0.756
52DAP/47DAP	0.72309	0.25
57DAP/52DAP	1.06018	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08456	0.366
17DAP/reference	1.10296	0.089
27DAP/reference	1.05763	0.529
39DAP/reference	0.97883	0.797
41DAP/reference	1.06692	0.085
42DAP/reference	1.07947	0.166
43DAP/reference	1.02616	0.518
47DAP/reference	1.08079	0.353
52DAP/reference	1.11434	0.158
57DAP/reference	0.97412	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00322	0.782
27DAP/17DAP	1.07547	0.822
39DAP/27DAP	1.11011	0.646
41DAP/39DAP	0.81872	0.169
42DAP/41DAP	1.09602	1
43DAP/42DAP	1.00834	1
47DAP/43DAP	1.06503	0.857
52DAP/47DAP	1.08521	0.804
57DAP/52DAP	0.9208	0.524
57DAP/7DAP	0.95518	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90133	0.1
17DAP/reference	0.88018	0.028
27DAP/reference	0.87512	0.01
39DAP/reference	0.84919	0.011
41DAP/reference	0.80539	0.019
42DAP/reference	0.86686	0.053
43DAP/reference	0.80417	0.016
47DAP/reference	0.90097	0.293
52DAP/reference	0.80137	0.023
57DAP/reference	0.78072	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10262	0.55
17DAP/reference	1.27183	0.032
27DAP/reference	1.14837	0.297
39DAP/reference	1.11228	0.316
41DAP/reference	1.02884	1
42DAP/reference	1.02043	1
43DAP/reference	1.33019	0.038
47DAP/reference	1.09154	0.092
52DAP/reference	1.23227	0.017
57DAP/reference	1.22364	0.031

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9002	0.147
17DAP/reference	0.9476	0.358
27DAP/reference	0.90795	0.174
39DAP/reference	0.88072	0.122
41DAP/reference	0.81642	0.018
42DAP/reference	0.95683	0.445
43DAP/reference	1.04264	1
47DAP/reference	1.10403	0.461
52DAP/reference	0.79077	0.128
57DAP/reference	1.37122	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0118	1
26DAP/20DAP	0.87739	0.512
34DAP/26DAP	1.03828	1
51DAP/34DAP	1.72408	0.281
52DAP/51DAP	1.23103	0.238
53DAP/52DAP	1.15254	0.845
55DAP/53DAP	1.11544	0.922
57DAP/55DAP	0.9477	0.748
62DAP/57DAP	0.98862	0.994
68DAP/62DAP	0.99444	0.81
68DAP/14DAP	1.05539	0.739

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76684	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01382	0.886
Mature Green Tomato/Ripe Tomato	0.69109	0.038
Immature Eggplant/Mature Eggplant	1.76031	0.05
Ripe Pepper/Ripe Tomato	0.49524	0.224
Mature Eggplant/Ripe Tomato	0.83247	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94747	0.944
1-1-2/M82	1.15602	1
12-2/M82	1.14284	1
12-4/M82	0.98	1
1-3/M82	0.99541	1
2-1-1/M82	0.90746	0.465
2-1/M82	0.88535	0.74
2-6/M82	1.07428	0.695
3-2/M82	0.81451
4-1-1/M82	1.02027	1
4-1/M82	1.13232	0.363
4-3-2/M82	0.9576	1
4-3/M82	1.04364	1
5-3/M82	1.00135	1
6-2/M82	0.8719	0.497
6-3/M82	1.14031	1
7-1/M82	N/A	N/A
7-2/M82	0.95675	0.881
9-3-2/M82	1.04815	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00679	1
IL2-6/WTpooled	0.94616	1
IL7-5/WTpooled	1.37871	1
IL7-3/WTpooled	0.78685	0.418
IL12-4/WTpooled	1.22234	0.532
IL1-4/WTpooled	1.47909	1
WT/WTpooled	1.01546	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.94838	0.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10662	0.914
DC3000/delta hrp 6h	1.07625	1
DC3000/delta hrp 12h	1.05689	1
DC3000/delta hrp 24h	0.95762	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.04584	0.646

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07725	1
Exp 36h	1.7283	1
Exp 60h	0.82257	0.586

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.0237	1
Var 0h	1.02347	1
Var 12h I row2-row1	1.03114	0.736
Var 12h NI row2-row1	0.88888	0.494
Var 36h I row2-row1	0.99935	1
Var 36h NI row2-row1	1.00099	1
Var 60h I row2-row1	0.90189	0.832
Var 60h NI row2-row1	1.1106	0.793
Time course 0hI-0hNI	0.99228	1
Time course 12hI-12hNI	0.94491	0.446
Time course 36hI-36hNI	0.86275	0.025
Time course 60hI-60hNI	0.76686	0.007

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.94585	0.409
transgenic ySAMdc/azygous control (breaker)	1.24916	0.178
transgenic ySAMdc/azygous control (red)	0.80746	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98609	0.806

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50663	0.222

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85085	1
Manapal/WT (break)	1.24084	1
Manapal/WT (red)	1.26971	1